Dear PyMOL users,
I would like to generate a figure of my protein where the surface electrostatic
potential is displayed. PyMOL now comes with a demo function for display of
such a surface. However, when I apply the commands used in this demo, i.e.
cmd.set("coulomb_dielectric",80.0)
cm
Roger,
The problem with computing electrostatic maps in PyMOL
currently is that the Coulomb equation assumes a uniform dielectric and
thus doesn't give you correct potentials for macromolecules. It is much
better to use an external tool such as Grasp, MEAD, APBS, or Delphi,
which can
Chris,
I hereby nominate the Targus PAUM01U as the official 3-button mouse for
PyMOL users on the go.
http://www.targus.com/us/product_details.asp?sku=PAUM01U
They might be too small for some, but they work great for me, at home
and on the road!
(plus, they color-coordinate with Ti PowerBoo
Hi all,
I have a collection of molecules and want to color a particular helix (in
cartoon mode) a specific color different from other helices. Unfortunately, I
had previously set cartoon_color from "default" to another color, so now
specifying a color for that helix (or even "color red, ss h")
David,
For settings such as cartoon_color, surface_color, mesh_color,
the default value is -1.
set cartoon_color, -1
or
set cartoon_color, -1, object-name
will restore the color.
Thanks for pointing out that:
set cartoon_color, default
doesn't work!
Cheers,
Warren
--
mailto:war..
